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Hg38 debug #23

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Hg38 debug #23

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Commits on Mar 19, 2024

  1. Renamed ChrConverter.isInBlockedRegion to isInIgnoredRegion. 

    Signed-off-by: Philip R. Kensche <[email protected]>
    @vinjana
    vinjana committed Mar 19, 2024
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Commits on Mar 21, 2024

  1. More documentation. 

    Signed-off-by: Philip R. Kensche <[email protected]>
    @vinjana
    vinjana committed Mar 21, 2024
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  2. Added testRunner to clean target in Makefile. 

    Signed-off-by: Philip R. Kensche <[email protected]>
    @vinjana
    vinjana committed Mar 21, 2024
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  3. Restored handling of '*' chromosomes (unaligned reads in SAM format) … 

    …as INVALID, like it used to be in the old ChrConverter.

Signed-off-by: Philip R. Kensche <[email protected]>
    @vinjana
    vinjana committed Mar 21, 2024
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  4. Handle overlooked check for ZERO in SamSegmentMapper (sophia tool). 

    Signed-off-by: Philip R. Kensche <[email protected]>
    @vinjana
    vinjana committed Mar 21, 2024
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Commits on Mar 25, 2024

  1. Small refactoring plus debug code, to see why sophia does not progr… 

    …ess.

Signed-off-by: Philip R. Kensche <[email protected]>
    @vinjana
    vinjana committed Mar 25, 2024
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Commits on Jun 6, 2024

  1. Some more changes, but really just work in progress. 

    Signed-off-by: Philip R. Kensche <[email protected]>
    @vinjana
    vinjana committed Jun 6, 2024
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  2. Small change in Makefile, to be able to use CXXFLAGS to override Make… 

    …file defaults. Also added unused annotation (for non-devel build).

Note: The non-develop, non-static build is broken.

Signed-off-by: Philip R. Kensche <[email protected]>
    @vinjana
    vinjana committed Jun 6, 2024
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